Sequence
atgc intronic sequence ATGC exonic sequencegtgagttttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
Basic information
Orthologous splice sites
atgc intronic sequence ATGC exonic sequence
upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA17G02560.1 (Glycine max), 3'ss of exon 1
gtgagt---tttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
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gtgactcactcactttctttatctctattacttgccttttcaatatcaagaacgtgaatttgaaagtagctagcatttttttctttgctagGGTCTCTGTACTGGGGTCTTTATATTGTTTACTACTGGAGGAAAAAGCTCTCATATACTTGTCTTCAGTGAAGATCTTTTCTTCATTTATCTTCTTCCAC
upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: GLYMA07G38160.1 (Glycine max), 3'ss of exon 1
gtgagttttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattg-cagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
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gtcactttctt-tatctctattacttgcc-------ttttcatcaacaacatgaatttgaagc---agctagCATTTTTTCTTTGTCAGGGTCTCTGTACTGGGGTCTTTATATTGTTTACCACGGGAGGAAAAAGCTCTCATATATTAGTTTTCAGTGAAGATCTTTTCTT-----------------
upper sequence: Vv05s0020g01960.t01 (Vitis vinifera), 3'ss of exon 2
lower sequence: AT3G06370.1 (Arabidopsis thaliana), 3'ss of exon 2
gtgagttttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
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gtaagcttcgttttttt----tgtttccccaaatctttaaacacattgcttagaaac--attctaaa-tttggattacgcaaaaatagGGTTCGTGTACTGGGATTGTGATCTTGCTTATAAGTGGAGGCAAAAGCTCAAGGATTCTTGTGTTTAGTGAAGATCTCTTCTTTATTTATCTTCTTCCAC atgc intronic sequence ATGC exonic sequenceIntronic sequence truncated to 55 bases.agttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
gattgat putative branch site (score: 4)
aattgat TA-rich tract
Putative cis-regulatory sequences
atgc | intron | ATGC | exonic elements by Pertea et al. |
ATGC | exon | atgc | putative intronic elements |
| | ATGC | putative exonic elements identified for retained introns |
10 20 30 40 50 60 70 80 90 100 110 120 130 140 150 160 170 180 190 200 210 220
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|
gtgagttttgtatatttatagcatttgatagacagttcggcctggtttacagggaattgatgccaaactttgtgtggattgattgcagGGTCTGTGCACAGGAATTATTATTCTACTAACCACCCGAGGAAAAAGCTCACATATTTTAGTATTCAGTGAAGATCTTTTCTTTATTTATCTTCTTCCAC
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGAAGA